3DNA Forum

Questions and answers => w3DNA -- web interface to 3DNA => Topic started by: cllawson on August 08, 2019, 12:12:22 pm

Netiquette · Download · News · Gallery · G-quadruplexes · DSSR-Jmol · DSSR-PyMOL · Video Overview · DSSR v2.5.0 (DSSR Manual) · Homepage

Title: w3dna server update schedule?
Post by: cllawson on August 08, 2019, 12:12:22 pm

Hi Xiang-Jun,

I notice that ids for more recently released entries yield the following message from the w3DNA server: Empty or invalid ID, please type in a valid one.  (example: http://www.rcsb.org/structure/6I84).
So I'm wondering:
(1) how often the server is updated?
(2) since you can already analyze uploaded structures on the fly have you thought about enabling option to pull/analyze coordinates for newer PDB entries?

Thanks, Cathy

Title: Re: w3dna server update schedule?
Post by: xiangjun on August 08, 2019, 12:28:47 pm

Hi Cathy,

Good catch!

It is in the to-do list to automatically handle newer PDB entries than the initially processed dataset dated March 6, 2019 (reported in the Web 3DNA 2.0 paper). I chatted with Shuxiang about this feature a while ago. Hopefully, the server will be updated in the near future with the functionality.

Best regards,

Xiang-Jun

Title: Re: w3dna server update schedule?
Post by: cllawson on August 09, 2019, 07:42:31 am

Thanks -- that is good news!

Funded by the NIH R24GM153869 grant on X3DNA-DSSR, an NIGMS National Resource for Structural Bioinformatics of Nucleic Acids

Created and maintained by Dr. Xiang-Jun Lu, Department of Biological Sciences, Columbia University